hmht.control: Controls for highlighted regions in mhtplot

In gap: Genetic Analysis Package

Controls for highlighted regions in mhtplot

Description

Helper function defining highlighted markers or genomic regions to be emphasised in mhtplot().

Usage

hmht.control(
  data = NULL,
  colors = "red",
  yoffset = 0.25,
  cex = 1.2,
  boxed = FALSE
)

Arguments

data	Data frame with four columns: chromosome, position, value and label (e.g. gene name).
colors	Character vector of colours used for highlighted regions. Colours are recycled if multiple labels are present.
yoffset	Numeric vertical offset added to the highest highlighted point before placing the label.
cex	Numeric scaling factor for label text.
boxed	Logical. If TRUE, labels are drawn inside a white box with black border.

Value

A list of highlight control parameters for mhtplot().

See Also

mhtplot(), mht.control()

Examples

## Example highlight specification
hdata <- data.frame(
  chr  = c(1,3,5),
  pos  = c(10000,50000,90000),
  p    = c(1e-8,1e-7,1e-9),
  gene = c("GENE1","GENE2","GENE3")
)
hmht.control(data = hdata, cex=0.8, colors = "red", boxed = TRUE)

gap documentation built on May 28, 2026, 9:07 a.m.